arXiv AI

Where Should Physics Enter a Molecular Crystal Generator?

The paper introduces CrystAF, an all‑atom crystal flow‑map generation model, and evaluates where physics should be incorporated into generative crystal structure models. By applying physics‑informed post‑training, the authors improve molecular validity and crystal packing without altering sampling speed, while inference‑time corrections further refine the structures. The study demonstrates that post‑training and inference‑time physics are complementary, and that the post‑training approach transfers to other generators such as Clari‑M and MolCrystalFlow.

arXiv AI

Sep 11

uFlowCSP: Crystal Structure Prediction using Mean flow generative models

uFlowCSP is a MeanFlow-based crystal structure prediction model that learns the average probability‑flow velocity, enabling it to generate complete crystal structures in one to five network evaluations. It achieves inference speeds 5×–58× faster than diffusion and flow‑matching methods while matching or surpassing their performance, with a chemistry‑ and symmetry‑aware Transformer that uses canonical atom ordering and per‑token chemistry embeddings. On the MP‑20 benchmark, uFlowCSP attains comparable or higher accuracy with far fewer evaluations and significantly lower wall‑clock time, demonstrating improved accuracy per network evaluation.

By Sourin Dey, Dipannoy Das Gupta, Lai Wei, Sadman Sadeed Omee, Jianjun Hu

llms rag diffusion

arXiv Machine Learning

1d ago

GLASS: Global Latent Aggregation with Slot-based Set Decoding for Scalable All-Atom Crystal Generation

arXiv:2609.37158v1 Announce Type: new Abstract: Generative models for crystals enable the discovery of novel structures, but scaling all-atom generation to larger systems such as metal--organic frame...

By Hendrik Kra{\ss}, Seyed Mohamad Moosavi, Mathias Niepert

diffusion

arXiv Machine Learning

Jun 3

Fast Organic Crystal Structure Prediction with Unit Cell Flow Matching

arXiv:2606. 03199v1 Announce Type: new Abstract: Organic crystal structure prediction (CSP) is a requirement for computational modelling of organic solids, but traditionally costs several CPU-years per molecule.

By Alston Lo, Luka Mucko, Austin H. Cheng, Andy Cai, Alastair J. A. Price, Wojciech Matusik, Al\'an Aspuru-Guzik

diffusion benchmarks safety

Hugging Face Trending Papers

Aug 27

Packora: Systematic Design for Generative Molecular Crystal Structure Prediction

Molecular crystal structure prediction (CSP) is important in pharmaceuticals, agrochemicals, and organic electronics, where subtle differences in molecular conformation and packing can strongly affect...

benchmarks

arXiv Machine Learning

Jun 9

Enhancing Spatial Reasoning in Large Language Models for Metal-Organic Frameworks Structure Prediction

arXiv:2601. 09285v2 Announce Type: replace Abstract: Metal-organic frameworks (MOFs) are porous crystalline materials with broad applications such as carbon capture and drug delivery, yet accurately predicting their 3D structures remains a significant challenge.

By Mianzhi Pan, JianFei Li, Peishuo Liu, Botian Wang, Yawen Ouyang, Yiming Rong, Hao Zhou, Jianbing Zhang

llms reinforcement-learning fine-tuning benchmarks

arXiv Machine Learning

Jul 31

APO: Unsupervised Atomic Policy Optimization for 3D Structure Prediction of Atomic Systems

arXiv:2607. 28553v1 Announce Type: new Abstract: Predicting the 3D structures of atomic systems is fundamental to advancing material science and drug discovery.

By Shentong Mo, Yatao Bian

benchmarks safety

arXiv Machine Learning

Aug 28

Packora: Systematic Design for Generative Molecular Crystal Structure Prediction

Packora is a flow-based generative model designed for molecular crystal structure prediction (CSP). It jointly predicts atomic coordinates and lattice parameters from molecular graphs, supporting multi-component and organometallic crystals and allowing conditioning on conformers, stereochemistry, and space-group data. In evaluations inspired by the CCDC CSP blind test, Packora outperforms baselines on generation and ranking benchmarks, achieving superior matched-budget coverage, higher experimental-form recovery, lower ranks, and faster convergence.

By Nayoung Kim, Kiyoung Seong, Sungsoo Ahn

benchmarks

arXiv Machine Learning

Jul 8

AtomBench: A Benchmarking Framework for Generative Crystal Reconstruction Models in Conventional Superconductors

arXiv:2510. 16165v2 Announce Type: replace Abstract: A key question in benchmarking generative crystal reconstruction models is how the amount and type of crystallographic information provided to a generative model affects its ability to reconstruct atomic structures.

By Charles Rhys Campbell, Aldo H. Romero, Kamal Choudhary

benchmarks

arXiv Machine Learning

Sep 23

OMatG-flash: An All-Atom Flow Map with Reinforce Adjoint Matching for Scalable Materials Discovery

arXiv:2609.26402v1 Announce Type: new Abstract: The discovery of novel inorganic materials drives technological breakthroughs in critical fields such as computing and energy storage. Generative AI ha...

By Thomas Egg, Harry Winston Sullivan, Ellad B. Tadmor, Stefano Martiniani

diffusion fine-tuning efficiency benchmarks

arXiv Machine Learning

Jul 7

FastCSP: Accelerated Molecular Crystal Structure Prediction with Universal Model for Atoms

arXiv:2508. 02641v2 Announce Type: replace-cross Abstract: Molecular crystal structure prediction (CSP) is essential for applications in pharmaceuticals and organic electronics.

By Vahe Gharakhanyan, Yi Yang, Luis Barroso-Luque, Daniel S. Levine, Sushree Jagriti Sahoo, Brandon M. Wood, Kyle Michel, Muhammed Shuaibi, Gregory J. O. Beran, Viachaslau Bernat, Misko Dzamba, Xiang Fu, Meng Gao, Xingyu Liu, Benjamin K. Miller, Keian Noori, Lafe J. Purvis, Tingling Rao, Ammar Rizvi, Matt Uyttendaele, Andrew J. Ouderkirk, Chiara Daraio, C. Lawrence Zitnick, Arman Boromand, Noa Marom, Zachary W. Ulissi, Anuroop Sriram

fine-tuning efficiency

arXiv Machine Learning

Jun 9

Few-step Cofolding with All-Atom Flow Maps

arXiv:2606. 08375v1 Announce Type: new Abstract: All-atom generative modeling of 3D biomolecular complexes has emerged as the dominant paradigm for predicting the structure of proteins and protein-ligand systems.

By Gianluca Scarpellini, Ron Shprints, Peter Holderrieth, Juno Nam, Pranav Murugan, Rafael G\'omez-Bombarelli, Tommi Jaakola, Maruan Al-Shedivat, Nicholas Matthew Boffi, Avishek Joey Bose

diffusion efficiency benchmarks safety

arXiv AI

Aug 10

ED-CSP: Crystal Structure Prediction from Electron Diffraction

arXiv:2608. 06448v1 Announce Type: cross Abstract: Recovering a periodic 3D crystal structure from sparse, unindexed electron diffraction (ED) observations is a challenging generative inverse problem.

By Germain Poloudenny, Ya\"el Fr\'egier, Arnaud Demorti\`ere

benchmarks

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